I'm using social sequence analysis, and comparing between different distance methods for my data. I'm wondering if there is a way to view/call the automatic substitution cost matrix that the dynamic hamming distance procedure uses? I have been able to create what I think would be the substitution cost matrices with the seqcost and the seqsubm functions (code below). Both these functions give me the same results - which is to be expected. However, I am wanting to know that what I've generated using this code is what the alogorthim would be using to compute? And, is there a way to view the substitution cost matrix that the procedure uses?
Thanks in advance for your advice!
#Compute the Dynamic Hamming distances. dist.dhd <- seqdist(number.seq, method = "DHD", with.miss = FALSE, norm = "none") dist.dhd ##create DHD cost matrix - both functions give same output dhdcost <- seqcost(number.seq, method = "TRATE", time.varying = TRUE, transition = "both") dhdcost couts <- seqsubm(number.seq, method = "TRATE", time.varying = TRUE, transition = "both") round(couts, 2) ```